[Go-diff] GO update 02/25/2009

Wed Feb 25 21:30:49 PST 2009

OBODIFF of gene_ontology_write.obo version 1.457 by 1.458

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0070444
* Created object of type obo:TERM with id GO:0070445
* Created object of type obo:TERM with id GO:0070446
* Created object of type obo:TERM with id GO:0070447
* Created object of type obo:TERM with id GO:0070448
* Created object of type obo:TERM with id GO:0070449
* Created object of type obo:TERM with id GO:0070450
* Populated new object GO:0070444 (macro)
  * Changed name of GO:0070444 from "<new term>" to "oligodendrocyte progenitor proliferation"
  * Set definition of GO:0070444 to "The multiplication or reproduction of oligodendrocyte progenitor cells by cell division, resulting in the expansion of their population. Oligodendrocyte progenitors give rise to oligodendrocytes, which form the insulating myelin sheath of axons in the central nervous system."
  * Added definition dbxref GOC:mah to GO:0070444
  * Added definition dbxref GOC:sl to GO:0070444
  * Added definition dbxref PMID:15504915 to GO:0070444
  * Added synonym "oligodendrocyte precursor proliferation" to GO:0070444
  * Added general dbxref GOC:mah to synonym oligodendrocyte precursor proliferation of GO:0070444
  * Changed synonym scope of GO:0070444 from "Related" to "Exact"
  * Copied GO:0070444 to GO:0008283 with type OBO_REL:is_a
  * Copied GO:0070444 to GO:0042063 with type part_of
  * Assigned namespace "biological_process" to GO:0070444
* Populated new object GO:0070445 (macro)
  * Changed name of GO:0070445 from "<new term>" to "regulation of oligodendrocyte progenitor proliferation"
  * Set definition of GO:0070445 to "Any process that modulates the frequency, rate or extent of oligodendrocyte progenitor proliferation."
  * Added definition dbxref GOC:mah to GO:0070445
  * Added definition dbxref GOC:sl to GO:0070445
  * Added synonym "regulation of oligodendrocyte precursor proliferation" to GO:0070445
  * Added general dbxref GOC:mah to synonym regulation of oligodendrocyte precursor proliferation of GO:0070445
  * Changed synonym scope of GO:0070445 from "Related" to "Exact"
  * Copied GO:0070445 to GO:0014013 with type OBO_REL:is_a
  * Copied GO:0070445 to GO:0042127 with type OBO_REL:is_a
  * Copied GO:0070445 to GO:0070444 with type regulates
  * Assigned namespace "biological_process" to GO:0070445
* Populated new object GO:0070446 (macro)
  * Changed name of GO:0070446 from "<new term>" to "negative regulation of oligodendrocyte progenitor proliferation"
  * Set definition of GO:0070446 to "Any process that stops or decreases the rate or extent of oligodendrocyte progenitor proliferation."
  * Added definition dbxref GOC:mah to GO:0070446
  * Added definition dbxref GOC:sl to GO:0070446
  * Added synonym "negative regulation of oligodendrocyte precursor proliferation" to GO:0070446
  * Added general dbxref GOC:mah to synonym negative regulation of oligodendrocyte precursor proliferation of GO:0070446
  * Changed synonym scope of GO:0070446 from "Related" to "Exact"
  * Copied GO:0070446 to GO:0070444 with type negatively_regulates
  * Copied GO:0070446 to GO:0014014 with type OBO_REL:is_a
  * Copied GO:0070446 to GO:0008285 with type OBO_REL:is_a
  * Copied GO:0070446 to GO:0070445 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070446
* Populated new object GO:0070447 (macro)
  * Changed name of GO:0070447 from "<new term>" to "positive regulation of oligodendrocyte progenitor proliferation"
  * Set definition of GO:0070447 to "Any process that activates or increases the rate or extent of oligodendrocyte progenitor proliferation."
  * Added definition dbxref GOC:mah to GO:0070447
  * Added definition dbxref GOC:sl to GO:0070447
  * Added synonym "positive regulation of oligodendrocyte precursor proliferation" to GO:0070447
  * Added general dbxref GOC:mah to synonym positive regulation of oligodendrocyte precursor proliferation of GO:0070447
  * Changed synonym scope of GO:0070447 from "Related" to "Exact"
  * Copied GO:0070447 to GO:0008284 with type OBO_REL:is_a
  * Copied GO:0070447 to GO:0014015 with type OBO_REL:is_a
  * Copied GO:0070447 to GO:0070445 with type OBO_REL:is_a
  * Copied GO:0070447 to GO:0070444 with type positively_regulates
  * Assigned namespace "biological_process" to GO:0070447
* Populated new object GO:0070448 (macro)
  * Changed name of GO:0070448 from "<new term>" to "laricitrin 5'-O-methyltransferase activity"
  * Added comment "Note that this term represents one of two reactions that are grouped together in EC 2.1.1.149."
  * Set definition of GO:0070448 to "Catalysis of the reaction: S-adenosyl-L-methionine + laricitrin = S-adenosyl-L-homocysteine + syringetin."
  * Added definition dbxref MetaCyc:RXN-8452 to GO:0070448
  * Added general dbxref EC:2.1.1.149 to GO:0070448
  * Added general dbxref MetaCyc:RXN-8452 to GO:0070448
  * Added synonym "CrCOMT2" to GO:0070448
  * Added general dbxref EC:2.1.1.149 to synonym CrCOMT2 of GO:0070448
  * Added synonym "flavonoid 3',5'-O-dimethyltransferase activity" to GO:0070448
  * Added general dbxref EC:2.1.1.149 to synonym flavonoid 3',5'-O-dimethyltransferase activity of GO:0070448
  * Added synonym "S-adenosyl-L-methionine:myricetin O-methyltransferase activity" to GO:0070448
  * Added general dbxref EC:2.1.1.149 to synonym S-adenosyl-L-methionine:myricetin O-methyltransferase activity of GO:0070448
  * Copied GO:0070448 to GO:0008171 with type OBO_REL:is_a
  * Copied GO:0070448 to GO:0008757 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070448
* Populated new object GO:0070449 (macro)
  * Changed name of GO:0070449 from "<new term>" to "elongin complex"
  * Added comment "See also the cellular component terms 'cyclin-dependent protein kinase activating kinase holoenzyme complex ; GO:0019907' and 'DNA-directed RNA polymerase II, holoenzyme ; GO:0016591'."
  * Set definition of GO:0070449 to "A transcription elongation factor complex that suppresses RNA polymerase II pausing, and may act by promoting proper alignment of the 3?-end of nascent transcripts with the polymerase catalytic site. Consists of of a transcriptionally active Elongin A subunit (abut 100 kDa)and two smaller Elongin B (about 18 kDa) and Elongin C (about 15 kDa)subunits."
  * Added definition dbxref PMID:12676794 to GO:0070449
  * Added synonym "elongin (SIII) complex" to GO:0070449
  * Added general dbxref CORUM:56 to synonym elongin (SIII) complex of GO:0070449
  * Changed synonym scope of GO:0070449 from "Related" to "Exact"
  * Added synonym "transcription elongation factor SIII complex" to GO:0070449
  * Added general dbxref PMID:8244996 to synonym transcription elongation factor SIII complex of GO:0070449
  * Changed synonym scope of GO:0070449 from "Related" to "Exact"
  * Copied GO:0070449 to GO:0008023 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070449
* Populated new object GO:0070450 (macro)
  * Changed name of GO:0070450 from "<new term>" to "interleukin4-interleukin-4 receptor complex"
  * Set definition of GO:0070450 to "A protein complex that is formed by the association of a heterodimeric interleukin-4 receptor complex with an interleukin-4 molecule."
  * Added definition dbxref GOC:mah to GO:0070450
  * Added definition dbxref PMID:10358772 to GO:0070450
  * Added GO:0070450 to category goslim_pir
  * Added synonym "IL4-IL4 receptor complex" to GO:0070450
  * Added general dbxref GOC:mah to synonym IL4-IL4 receptor complex of GO:0070450
  * Changed synonym scope of GO:0070450 from "Related" to "Exact"
  * Added synonym "IL4-IL4R-IL2RG complex" to GO:0070450
  * Added general dbxref CORUM:1515 to synonym IL4-IL4R-IL2RG complex of GO:0070450
  * Changed synonym scope of GO:0070450 from "Related" to "Narrow"
  * Copied GO:0070450 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0070450 to GO:0044459 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070450
* Added synonym "PI3-kinase p85-subunit alpha- PI3-kinase p110 complex" to GO:0005942
* Added general dbxref CORUM:2575 to synonym PI3-kinase p85-subunit alpha- PI3-kinase p110 complex of GO:0005942
* Changed synonym scope of GO:0005942 from "Related" to "Narrow"
* Added synonym "PIK3CA-PIK3R1 complex" to GO:0005942
* Added general dbxref CORUM:439 to synonym PIK3CA-PIK3R1 complex of GO:0005942
* Changed synonym scope of GO:0005942 from "Related" to "Narrow"
* Changed name of GO:0008024 from "transcription elongation factor complex b" to "positive transcription elongation factor complex b"
* Changed definition of GO:0008024 from "A complex of cyclin T and a cyclin-dependent protein kinase, catalyst, that facilitates the transition from abortive to productive elongation by phosphorylating the CTD domain of the large subunit of DNA-directed RNA polymerase II, holoenzyme." to "A transcription elongation factor complex that facilitates the transition from abortive to productive elongation by phosphorylating the CTD domain of the large subunit of DNA-directed RNA polymerase II, holoenzyme. Consists of cyclin T and a cyclin-dependent protein kinase catalytic subunit."
* Deleted definition dbxref UniProtKB:O60563 from GO:0008024
* Added definition dbxref PMID:10766736 to GO:0008024
* Added definition dbxref PMID:7759473 to GO:0008024
* Added synonym "P-TEFb" to GO:0008024
* Added general dbxref PMID:7759473 to synonym P-TEFb of GO:0008024
* Changed synonym scope of GO:0008024 from "Related" to "Exact"
* Changed definition of GO:0010842 from "The process whereby the vertebrate retina is organized into three laminae: the outer nuclear layer (ONL), which contains photoreceptor nuclei; the inner nuclear layer (INL), which contains amacrine, bipolar and horizontal cells; and the retinal ganglion cell (RGC) layer. Between the inner and outer nuclear layers, the outer plexiform layer (OPL) contains connections between the photoreceptors and bipolar and horizontal cells. The inner plexiform layer (IPL) is positioned between the INL and the ganglion cell layer and contains the dendrites of RGCs and processes of bipolar and amacrine cells. Spanning all layers of the retina are the radially oriented M?ller glia." to "The process whereby the vertebrate retina is organized into three laminae: the outer nuclear layer (ONL), which contains photoreceptor nuclei; the inner nuclear layer (INL), which contains amacrine, bipolar and horizontal cells; and the retinal ganglion cell (RGC) layer. Between the inner and outer nuclear layers, the outer plexiform layer (OPL) contains connections between the photoreceptors and bipolar and horizontal cells. The inner plexiform layer (IPL) is positioned between the INL and the ganglion cell layer and contains the dendrites of RGCs and processes of bipolar and amacrine cells. Spanning all layers of the retina are the radially oriented Mueller glia."
* Changed definition of GO:0016516 from "A protein complex that binds interleukin-4, consisting of alpha, beta, and gamma chains; exists in three forms, one containing extracellular transmembrane and cytoplasmic domains, one lacking the cytoplasmic domain and a third that is secreted." to "A protein complex that binds interleukin-4 (IL-4) and consists of an alpha chain that binds IL-4 with high affinity and a gamma common chain that also forms part of the interleukni-2 receptor."
* Deleted definition dbxref UniProtKB:P16382 from GO:0016516
* Added definition dbxref PMID:10358772 to GO:0016516
* Deleted GO:0030327 --OBO_REL:is_a--> GO:0051603
* Copied GO:0030327 to GO:0019941 with type OBO_REL:is_a
* Deleted GO:0030328 --OBO_REL:is_a--> GO:0030327
* Changed name of GO:0033799 from "myricetin O-methyltransferase activity" to "myricetin 3'-O-methyltransferase activity"
* Added comment "Note that this term represents one of two reactions that are grouped together in EC 2.1.1.149."
* Changed definition of GO:0033799 from "Catalysis of the reaction: 2 S-adenosyl-L-methionine + myricetin = 2 S-adenosyl-L-homocysteine + syringetin." to "Catalysis of the reaction: S-adenosyl-L-methionine + myricetin = S-adenosyl-L-homocysteine + laricitrin."
* Deleted definition dbxref EC:2.1.1.149 from GO:0033799
* Added definition dbxref MetaCyc:RXN-8451 to GO:0033799
* Added general dbxref MetaCyc:RXN-8451 to GO:0033799
* Changed synonym scope of GO:0033799 from "Exact" to "Related"
* Changed synonym scope of GO:0033799 from "Exact" to "Related"
* added secondary id GO:0043925 to GO:0042729
* added secondary id GO:0043926 to GO:0042729
* Changed definition of GO:0042729 from "A large protein complex, containing around 8-10 subunits in yeast, including Duo1p, Dam1p, Dad1p and Ask1p. The complexes associate with kinetochores or microtubules and play a role spindle attachment, chromosome segregation and spindle stability." to "A large protein complex, containing around 8-10 subunits in yeast, including Duo1p, Dam1p, Dad1p and Ask1p. The complex forms part of the kinetochore, associates with microtubules when the kinetochore attaches to the spindle, and plays a role in spindle attachment, chromosome segregation and spindle stability."
* Added synonym "condensed nuclear chromosome kinetochore-associated DASH complex" to GO:0042729
* Changed synonym scope of GO:0042729 from "Related" to "Exact"
* Copied GO:0042729 to GO:0000778 with type part_of
* Copied GO:0042729 to GO:0044454 with type OBO_REL:is_a
* Deleted GO:0043925 --OBO_REL:is_a--> GO:0005875
* Deleted GO:0043925 --part_of--> GO:0005828
* Deleted GO:0043925 --OBO_REL:is_a--> GO:0042729
* Destroyed object GO:0043925
* Deleted GO:0043926 --OBO_REL:is_a--> GO:0044454
* Deleted GO:0043926 --part_of--> GO:0000778
* Deleted GO:0043926 --OBO_REL:is_a--> GO:0042729
* Destroyed object GO:0043926
* Changed synonym scope of GO:0070023 from "Related" to "Narrow"
* Added synonym "lipoteichoic acid formation" to GO:0070395
* Added general dbxref GOC:add to synonym lipoteichoic acid formation of GO:0070395
* Changed synonym scope of GO:0070395 from "Related" to "Exact"
* Added synonym "lipoteichoic acid synthesis" to GO:0070395
* Added general dbxref GOC:add to synonym lipoteichoic acid synthesis of GO:0070395
* Changed synonym scope of GO:0070395 from "Related" to "Exact"
* Added synonym "wall teichoic acid formation" to GO:0070398
* Added general dbxref GOC:add to synonym wall teichoic acid formation of GO:0070398
* Changed synonym scope of GO:0070398 from "Related" to "Exact"
* Added synonym "wall teichoic acid synthesis" to GO:0070398
* Added general dbxref GOC:add to synonym wall teichoic acid synthesis of GO:0070398
* Changed synonym scope of GO:0070398 from "Related" to "Exact"